SMTL ID : 7z58.2 (3 other biounits)

Crystal structure of human Cathepsin L in complex with covalently bound Calpeptin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

monomer

Ligands

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 3 residues within 4Å: Chain A: P.59, Q.60, D.79 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.79

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 9 residues within 4Å: Chain A: Q.19, G.20, Q.21, C.22, G.23, L.144, W.189 Ligands: PEG.3, RN2.5 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.19, A:Q.21 PEG.3: 11 residues within 4Å: Chain A: A.138, G.139, H.140, E.141, F.143, L.144, D.162, H.163, W.189 Ligands: PEG.2, RN2.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.139

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 4 residues within 4Å: Chain A: S.88, Y.89, P.90, K.99 No protein-ligand interaction detected (PLIP)

1 x RN2: Calpeptin(Covalent)

RN2.5: 22 residues within 4Å: Chain A: Q.19, G.23, S.24, C.25, W.26, G.61, N.62, E.63, C.65, N.66, G.67, G.68, L.69, M.70, Y.72, A.135, M.161, D.162, H.163, G.164 Ligands: PEG.2, PEG.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:E.63, A:L.69, A:Y.72 Hydrogen bonds: A:Q.19, A:C.25, A:G.68, A:G.68, A:D.162 Water bridges: A:Q.19, A:H.163

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reinke, P.Y.A. et al., Calpeptin is a potent cathepsin inhibitor and drug candidate for SARS-CoV-2 infections. Commun Biol (2023)

Release Date

2023-03-22

Peptides

Cathepsin L: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Cathepsin L

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